noone@mail.com Analysis of Dieting study 16S data % Fri Sep 7 05:46:18 2018

(1.6.1.3.5) Plots of Abundance.

Plots are shown with relation to various combinations of meta data variables and in different graphical representations. Lots of plots here.

(1.6.1.3.5.2) Iterating over all combinations of grouping variables

(1.6.1.3.5.2.1) Grouping variables visit,Drug.Before.Diet

(1.6.1.3.5.2.2) Iterating over Abundance. profile sorting order

(1.6.1.3.5.2.2.1) Abundance. profile sorting order: average abundance

(1.6.1.3.5.2.2.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.6.1.3.5.2.2.2.1) faceted plots. Iterating over orientation and, optionally, scaling

(1.6.1.3.5.2.2.2.1.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.6.1.3.5.2.2.2.1.1.0) Table 400. Data table used for plots. Data grouped by visit,Drug.Before.Diet. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.6.1.3.5.2.2.2.1.1.0-32361f50f2d.1.6.1.3.5.2.2.2.1.1.csv

(1.6.1.3.5.2.2.2.1.1.1) Widget 414. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by visit,Drug.Before.Diet. Click to see HTML widget file in full window: ./1.6.1.3.5.2.2.2.1.1.1-3235aa77a63Dynamic.Pivot.Table.html

(1.6.1.3.5.2.2.2.1.1.1) Widget 415. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by visit,Drug.Before.Diet. Click to see HTML widget file in full window: ./1.6.1.3.5.2.2.2.1.1.1-323e06f298Dynamic.Pivot.Table.html

(1.6.1.3.5.2.2.2.1.1.1) Table 401. Summary table. Data grouped by visit,Drug.Before.Diet. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.6.1.3.5.2.2.2.1.1.1-32314348468.1.6.1.3.5.2.2.2.1.1.csv

(1.6.1.3.5.2.2.2.1.1.1) Figure 982. Abundance. Data grouped by visit,Drug.Before.Diet. bar_stacked plot. Image file: plots/3236dccfe7b.svg.

(1.6.1.3.5.2.2.2.1.1.1) Figure 983. Abundance. Data grouped by visit,Drug.Before.Diet. bar (sample mean) plot. Image file: plots/3232b07e674.svg.

(1.6.1.3.5.2.2.2.1.1.1) Figure 984. Abundance. Data grouped by visit,Drug.Before.Diet. violin plot. Image file: plots/32340b33d96.svg.

(1.6.1.3.5.2.2.2.1.1.1) Figure 985. Abundance. Data grouped by visit,Drug.Before.Diet. boxplot plot. Image file: plots/32350c0b0b9.svg.

(1.6.1.3.5.2.2.2.1.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.6.1.3.5.2.2.2.1.2.1) Figure 986. Abundance. Data grouped by visit,Drug.Before.Diet. bar (sample mean) plot. Image file: plots/323259510d.svg.

(1.6.1.3.5.2.2.2.1.2.1) Figure 987. Abundance. Data grouped by visit,Drug.Before.Diet. violin plot. Image file: plots/3235053f18a.svg.

(1.6.1.3.5.2.2.2.1.2.1) Figure 988. Abundance. Data grouped by visit,Drug.Before.Diet. boxplot plot. Image file: plots/3233378756a.svg.

(1.6.1.3.5.2.2.2.2) dodged plots. Iterating over orientation and, optionally, scaling

(1.6.1.3.5.2.2.2.2.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.6.1.3.5.2.2.2.2.1.1) Figure 989. Abundance. Data grouped by visit,Drug.Before.Diet. bar (sample mean) plot. Image file: plots/323636d3da2.svg.

(1.6.1.3.5.2.2.2.2.1.1) Figure 990. Abundance. Data grouped by visit,Drug.Before.Diet. violin plot. Image file: plots/3235eab765a.svg.

(1.6.1.3.5.2.2.2.2.1.1) Figure 991. Abundance. Data grouped by visit,Drug.Before.Diet. boxplot plot. Image file: plots/32333a2c637.svg.

(1.6.1.3.5.2.2.2.2.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.6.1.3.5.2.2.2.2.2.1) Figure 992. Abundance. Data grouped by visit,Drug.Before.Diet. bar (sample mean) plot. Image file: plots/323199f52e7.svg.

(1.6.1.3.5.2.2.2.2.2.1) Figure 993. Abundance. Data grouped by visit,Drug.Before.Diet. violin plot. Image file: plots/32317e3f508.svg.

(1.6.1.3.5.2.2.2.2.2.1) Figure 994. Abundance. Data grouped by visit,Drug.Before.Diet. boxplot plot. Image file: plots/3237277aca6.svg.

(1.6.1.3.5.2.2.3) Abundance. profile sorting order: Ranking by 'stabsel' method

(1.6.1.3.5.2.2.4) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.6.1.3.5.2.2.4.1) faceted plots. Iterating over orientation and, optionally, scaling

(1.6.1.3.5.2.2.4.1.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.6.1.3.5.2.2.4.1.1.0) Table 402. Data table used for plots. Data grouped by visit,Drug.Before.Diet. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.6.1.3.5.2.2.4.1.1.0-32371a4d63a.1.6.1.3.5.2.2.4.1.1.csv

(1.6.1.3.5.2.2.4.1.1.1) Widget 416. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by visit,Drug.Before.Diet. Click to see HTML widget file in full window: ./1.6.1.3.5.2.2.4.1.1.1-32336c76fabDynamic.Pivot.Table.html

(1.6.1.3.5.2.2.4.1.1.1) Widget 417. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by visit,Drug.Before.Diet. Click to see HTML widget file in full window: ./1.6.1.3.5.2.2.4.1.1.1-3237787a87aDynamic.Pivot.Table.html

(1.6.1.3.5.2.2.4.1.1.1) Table 403. Summary table. Data grouped by visit,Drug.Before.Diet. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.6.1.3.5.2.2.4.1.1.1-32327353ce5.1.6.1.3.5.2.2.4.1.1.csv

(1.6.1.3.5.2.2.4.1.1.1) Figure 995. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. bar_stacked plot. Image file: plots/32337b7646f.svg.

(1.6.1.3.5.2.2.4.1.1.1) Figure 996. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. bar (sample mean) plot. Image file: plots/32362706ed9.svg.

(1.6.1.3.5.2.2.4.1.1.1) Figure 997. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. violin plot. Image file: plots/32341509627.svg.

(1.6.1.3.5.2.2.4.1.1.1) Figure 998. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. boxplot plot. Image file: plots/323410405f7.svg.

(1.6.1.3.5.2.2.4.1.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.6.1.3.5.2.2.4.1.2.1) Figure 999. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. bar (sample mean) plot. Image file: plots/32328ea2c46.svg.

(1.6.1.3.5.2.2.4.1.2.1) Figure 1000. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. violin plot. Image file: plots/32329716340.svg.

(1.6.1.3.5.2.2.4.1.2.1) Figure 1001. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. boxplot plot. Image file: plots/32314b49b73.svg.

(1.6.1.3.5.2.2.4.2) dodged plots. Iterating over orientation and, optionally, scaling

(1.6.1.3.5.2.2.4.2.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.6.1.3.5.2.2.4.2.1.1) Figure 1002. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. bar (sample mean) plot. Image file: plots/32339e350cf.svg.

(1.6.1.3.5.2.2.4.2.1.1) Figure 1003. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. violin plot. Image file: plots/3232eb743fd.svg.

(1.6.1.3.5.2.2.4.2.1.1) Figure 1004. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. boxplot plot. Image file: plots/3234125600f.svg.

(1.6.1.3.5.2.2.4.2.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.6.1.3.5.2.2.4.2.2.1) Figure 1005. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. bar (sample mean) plot. Image file: plots/323789e27ff.svg.

(1.6.1.3.5.2.2.4.2.2.1) Figure 1006. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. violin plot. Image file: plots/3231b3b406.svg.

(1.6.1.3.5.2.2.4.2.2.1) Figure 1007. Abundance. Data grouped by visit,Drug.Before.Diet. Sorting order of features is Ranking by 'stabsel' method. boxplot plot. Image file: plots/323750bd36a.svg.

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